[package - main-armv6-default][biology/metaeuk] Failed for metaeuk-6 in configure

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From: <pkg-fallout_at_FreeBSD.org>
Date: Wed, 30 Nov 2022 14:34:23 UTC
You are receiving this mail as a port that you maintain
is failing to build on the FreeBSD package build server.
Please investigate the failure and submit a PR to fix
build.

Maintainer:     yuri@FreeBSD.org
Log URL:        https://pkg-status.freebsd.org/beefy8/data/main-armv6-default/p0772795015a6_sbc92880072/logs/metaeuk-6.log
Build URL:      https://pkg-status.freebsd.org/beefy8/build.html?mastername=main-armv6-default&build=p0772795015a6_sbc92880072
Log:

=>> Building biology/metaeuk
build started at Wed Nov 30 14:33:37 UTC 2022
port directory: /usr/ports/biology/metaeuk
package name: metaeuk-6
building for: FreeBSD main-armv6-default-job-11 14.0-CURRENT FreeBSD 14.0-CURRENT 1400073 arm
maintained by: yuri@FreeBSD.org
Makefile ident: 
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Job Id: 11

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ac_cv_path_PERL=/usr/local/bin/perl ac_cv_path_PERL_PATH=/usr/local/bin/perl  PERL_USE_UNSAFE_INC=1 XDG_DATA_HOME=/wrkdirs/usr/ports/biology/metaeuk/work  XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/metaeuk/work  XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/metaeuk/work/.cache  HOME=/wrkdirs/usr/ports/biology/metaeuk/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/metaeuk/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/metaeuk/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh
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=======================<phase: check-sanity   >============================
===>  License GPLv3 accepted by the user
===========================================================================
=======================<phase: pkg-depends    >============================
===>   metaeuk-6 depends on file: /usr/local/sbin/pkg - not found
===>   Installing existing package /packages/All/pkg-1.18.4.pkg
[main-armv6-default-job-11] Installing pkg-1.18.4...
[main-armv6-default-job-11] Extracting pkg-1.18.4: .......... done
===>   metaeuk-6 depends on file: /usr/local/sbin/pkg - found
===>   Returning to build of metaeuk-6
===========================================================================
=======================<phase: fetch-depends  >============================
===========================================================================
=======================<phase: fetch          >============================
===>  License GPLv3 accepted by the user
===> Fetching all distfiles required by metaeuk-6 for building
===========================================================================
=======================<phase: checksum       >============================
===>  License GPLv3 accepted by the user
===> Fetching all distfiles required by metaeuk-6 for building
=> SHA256 Checksum OK for soedinglab-metaeuk-6-a5d39d9_GH0.tar.gz.
=> SHA256 Checksum OK for soedinglab-metaeuk-regression-6404519_GH0.tar.gz.
=> SHA256 Checksum OK for soedinglab-MMseqs2-Regression-f69b185_GH0.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract        >============================
===>  License GPLv3 accepted by the user
===> Fetching all distfiles required by metaeuk-6 for building
===>  Extracting for metaeuk-6
=> SHA256 Checksum OK for soedinglab-metaeuk-6-a5d39d9_GH0.tar.gz.
=> SHA256 Checksum OK for soedinglab-metaeuk-regression-6404519_GH0.tar.gz.
=> SHA256 Checksum OK for soedinglab-MMseqs2-Regression-f69b185_GH0.tar.gz.
===========================================================================
=======================<phase: patch-depends  >============================
===========================================================================
=======================<phase: patch          >============================
===>  Patching for metaeuk-6
===========================================================================
=======================<phase: build-depends  >============================
===>   metaeuk-6 depends on executable: xxd - not found
===>   Installing existing package /packages/All/vim-9.0.0823.pkg
[main-armv6-default-job-11] Installing vim-9.0.0823...
[main-armv6-default-job-11] `-- Installing gettext-runtime-0.21...
[main-armv6-default-job-11] |   `-- Installing indexinfo-0.3.1...
[main-armv6-default-job-11] |   `-- Extracting indexinfo-0.3.1: .... done
[main-armv6-default-job-11] `-- Extracting gettext-runtime-0.21: .......... done
[main-armv6-default-job-11] `-- Installing python39-3.9.15_1...
[main-armv6-default-job-11] |   `-- Installing libffi-3.4.3...
[main-armv6-default-job-11] |   `-- Extracting libffi-3.4.3: .......... done
[main-armv6-default-job-11] |   `-- Installing mpdecimal-2.5.1...
[main-armv6-default-job-11] |   `-- Extracting mpdecimal-2.5.1: .......... done
[main-armv6-default-job-11] |   `-- Installing readline-8.2.0...
[main-armv6-default-job-11] |   `-- Extracting readline-8.2.0: .......... done
[main-armv6-default-job-11] `-- Extracting python39-3.9.15_1: .......... done
[main-armv6-default-job-11] Extracting vim-9.0.0823: .......... done
=====
Message from python39-3.9.15_1:

--
Note that some standard Python modules are provided as separate ports
as they require additional dependencies. They are available as:

py39-gdbm       databases/py-gdbm@py39
py39-sqlite3    databases/py-sqlite3@py39
py39-tkinter    x11-toolkits/py-tkinter@py39
===>   metaeuk-6 depends on executable: xxd - found
===>   Returning to build of metaeuk-6
===>   metaeuk-6 depends on file: /usr/local/bin/cmake - not found
===>   Installing existing package /packages/All/cmake-core-3.24.3_2.pkg
[main-armv6-default-job-11] Installing cmake-core-3.24.3_2...
[main-armv6-default-job-11] `-- Installing expat-2.5.0...
[main-armv6-default-job-11] `-- Extracting expat-2.5.0: .......... done
[main-armv6-default-job-11] `-- Installing jsoncpp-1.9.5...
[main-armv6-default-job-11] `-- Extracting jsoncpp-1.9.5: .......... done
[main-armv6-default-job-11] `-- Installing libuv-1.44.2...
[main-armv6-default-job-11] `-- Extracting libuv-1.44.2: .......... done
[main-armv6-default-job-11] `-- Installing rhash-1.4.3...
[main-armv6-default-job-11] `-- Extracting rhash-1.4.3: .......... done
[main-armv6-default-job-11] Extracting cmake-core-3.24.3_2: .......... done
===>   metaeuk-6 depends on file: /usr/local/bin/cmake - found
===>   Returning to build of metaeuk-6
===>   metaeuk-6 depends on executable: ninja - not found
===>   Installing existing package /packages/All/ninja-1.11.1,2.pkg
[main-armv6-default-job-11] Installing ninja-1.11.1,2...
[main-armv6-default-job-11] Extracting ninja-1.11.1,2: ........ done
===>   metaeuk-6 depends on executable: ninja - found
===>   Returning to build of metaeuk-6
===>   metaeuk-6 depends on package: perl5>=5.32.r0<5.33 - not found
===>   Installing existing package /packages/All/perl5-5.32.1_3.pkg
[main-armv6-default-job-11] Installing perl5-5.32.1_3...
[main-armv6-default-job-11] Extracting perl5-5.32.1_3: .......... done
===>   metaeuk-6 depends on package: perl5>=5.32.r0<5.33 - found
===>   Returning to build of metaeuk-6
===========================================================================
=======================<phase: lib-depends    >============================
===========================================================================
=======================<phase: configure      >============================
===>  Configuring for metaeuk-6
===>  Performing out-of-source build
/bin/mkdir -p /wrkdirs/usr/ports/biology/metaeuk/work/.build
-- The CXX compiler identification is Clang 14.0.5
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /nxb-bin/usr/bin/c++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- The C compiler identification is Clang 14.0.5
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /nxb-bin/usr/bin/cc - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Source Directory: /wrkdirs/usr/ports/biology/metaeuk/work/metaeuk-6-a5d39d9/lib/mmseqs
-- Project Directory: /wrkdirs/usr/ports/biology/metaeuk/work/metaeuk-6-a5d39d9/lib/mmseqs
-- Compiler is clang(++)
-- ZSTD VERSION 1.3.8
-- ShellCheck disabled
-- Performing Test HAVE_POSIX_FADVISE
-- Performing Test HAVE_POSIX_FADVISE - Success
-- Performing Test HAVE_POSIX_MADVISE
-- Performing Test HAVE_POSIX_MADVISE - Success
-- Performing Test ATOMIC_LIBRARY_NATIVE
-- Performing Test ATOMIC_LIBRARY_NATIVE - Failed
-- Performing Test ATOMIC_LIBRARY_LIB
-- Performing Test ATOMIC_LIBRARY_LIB - Failed
-- Could NOT find Atomic (missing: ATOMIC_LIBRARY) 
-- OMPTL sorting fallback
-- Found ZLIB
-- Performing Test HAVE_ZLIB_CHECK
-- Performing Test HAVE_ZLIB_CHECK - Success
-- ZLIB works
-- Found BZLIB
-- Performing Test HAVE_BZLIB_CHECK
-- Performing Test HAVE_BZLIB_CHECK - Success
-- BZLIB works
CMake Error at lib/mmseqs/src/CMakeLists.txt:228 (message):
  -- Could not find OpenMP.  Skip check with -DREQUIRE_OPENMP=0.


-- Configuring incomplete, errors occurred!
See also "/wrkdirs/usr/ports/biology/metaeuk/work/.build/CMakeFiles/CMakeOutput.log".
See also "/wrkdirs/usr/ports/biology/metaeuk/work/.build/CMakeFiles/CMakeError.log".
*** Error code 1

Stop.
make: stopped in /usr/ports/biology/metaeuk